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A High-Level Petri Net Framework for Genetic Regulatory Networks

Lookup NU author(s): Richard Banks, Dr Jason Steggles

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Abstract

To understand the function of genetic regulatory networks in the development of cellular systems, we must not only realise the individual network entities, but also the manner by which they interact. Multi-valued networks are a promising qualitative approach for modelling such genetic regulatory networks, however, at present they have limited formal analysis techniques and tools. We present a flexible formal framework for modelling and analysing multi-valued genetic regulatory networks using high-level Petri nets and logic minimization techniques. We demonstrate our approach with a detailed case study in which part of the genetic regulatory network responsible for the carbon starvation stress response in Escherichia coli is modelled and analysed. We then compare and contrast this multi-valued model to a corresponding Boolean model and consider their formal relationship.


Publication metadata

Author(s): Banks R, Steggles LJ

Publication type: Article

Publication status: Published

Journal: Journal of Integrative Bioinformatics

Year: 2007

Volume: 4

Issue: 3

Pages: 60

Print publication date: 01/01/2007

ISSN (electronic): 1613-4516

Publisher: Bielefeld University, Bioinformatics Department

URL: http://journal.imbio.de/articles/pdf/jib-60.pdf

Notes: Special issue: 4th Integrative Bioinformatics Workshop, Gent, Belgium, 2007


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